Clec16a (C-type lectin domain containing 16A) - Rat Genome Database

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Gene: Clec16a (C-type lectin domain containing 16A) Ictidomys tridecemlineatus
Analyze
Symbol: Clec16a
Name: C-type lectin domain containing 16A
RGD ID: 12658679
Description: INVOLVED IN negative regulation of mitophagy (ortholog); negative regulation of proteasomal ubiquitin-dependent protein catabolic process (ortholog); positive regulation of autophagosome maturation (ortholog); ASSOCIATED WITH Addison's disease (ortholog); Charcot-Marie-Tooth disease type 1C (ortholog); immunoglobulin alpha deficiency (ortholog); FOUND IN endolysosome membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: C-type lectin domain containing 16A, transcript variant X1; C-type lectin domain containing 16A, transcript variant X2; C-type lectin domain containing 16A, transcript variant X3; C-type lectin domain containing 16A, transcript variant X4; C-type lectin domain containing 16A, transcript variant X5; C-type lectin domain containing 16A, transcript variant X6; C-type lectin domain family 16 member A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344111,244,073 - 111,419,122 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365309,089,476 - 9,264,592 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365309,089,478 - 9,264,563 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Clec16a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344111,244,073 - 111,419,122 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365309,089,476 - 9,264,592 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365309,089,478 - 9,264,563 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLEC16A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381610,944,564 - 11,182,186 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1610,944,539 - 11,182,186 (+)EnsemblGRCh38hg38GRCh38
GRCh371611,038,421 - 11,276,043 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361610,945,943 - 11,183,539 (+)NCBINCBI36Build 36hg18NCBI36
Celera1611,207,780 - 11,445,485 (+)NCBICelera
Cytogenetic Map16p13.13NCBI
HuRef1610,955,943 - 11,193,891 (+)NCBIHuRef
CHM1_11611,038,266 - 11,275,979 (+)NCBICHM1_1
T2T-CHM13v2.01610,980,535 - 11,218,466 (+)NCBIT2T-CHM13v2.0
Clec16a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391610,363,173 - 10,562,742 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1610,363,203 - 10,562,742 (+)EnsemblGRCm39 Ensembl
GRCm381610,545,309 - 10,744,878 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1610,545,339 - 10,744,878 (+)EnsemblGRCm38mm10GRCm38
MGSCv371610,545,480 - 10,744,964 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361610,458,965 - 10,658,449 (+)NCBIMGSCv36mm8
Celera1611,178,067 - 11,375,698 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map165.68NCBI
Clec16a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,434,725 - 5,631,246 (-)NCBIGRCr8
mRatBN7.2104,927,799 - 5,123,749 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl104,928,030 - 5,123,578 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx109,624,383 - 9,820,126 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,145,490 - 9,341,240 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,783,769 - 4,979,511 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0105,002,196 - 5,196,914 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl105,009,826 - 5,196,892 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0103,827,156 - 4,020,226 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4104,870,719 - 5,069,691 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1104,873,502 - 5,072,213 (-)NCBI
Celera103,948,821 - 4,141,759 (-)NCBICelera
Cytogenetic Map10q11NCBI
Clec16a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554427,368,952 - 7,584,703 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554427,369,616 - 7,584,052 (-)NCBIChiLan1.0ChiLan1.0
CLEC16A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21811,495,055 - 11,731,694 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11615,270,314 - 15,506,950 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0169,887,877 - 10,124,500 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11611,109,639 - 11,346,971 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1611,109,869 - 11,343,512 (+)Ensemblpanpan1.1panPan2
CLEC16A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1631,560,940 - 31,757,100 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl631,562,834 - 31,757,678 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha632,943,444 - 33,139,557 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0631,743,163 - 31,939,531 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl631,743,173 - 31,939,523 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1631,556,477 - 31,752,772 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0631,430,738 - 31,627,044 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0631,855,194 - 32,051,540 (-)NCBIUU_Cfam_GSD_1.0
CLEC16A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl331,938,135 - 32,158,320 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1331,938,133 - 32,158,343 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2332,799,756 - 32,868,904 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLEC16A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1510,420,866 - 10,658,370 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl510,420,931 - 10,658,507 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606819,506,544 - 19,745,864 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clec16a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248248,174,610 - 8,400,723 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248248,174,653 - 8,400,760 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000001398   ⟹   ENSSTOP00000001254
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365309,089,476 - 9,264,592 (+)Ensembl
Ensembl Acc Id: ENSSTOT00000040813   ⟹   ENSSTOP00000025361
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365309,148,003 - 9,264,555 (+)Ensembl
RefSeq Acc Id: XM_005327182   ⟹   XP_005327239
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,244,130 - 111,419,122 (+)NCBI
SpeTri2.0NW_0049365309,089,478 - 9,264,563 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013359513   ⟹   XP_013214967
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,244,073 - 111,419,122 (+)NCBI
SpeTri2.0NW_0049365309,089,527 - 9,264,563 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021727659   ⟹   XP_021583334
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,244,113 - 111,419,122 (+)NCBI
SpeTri2.0NW_0049365309,089,478 - 9,264,563 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021727660   ⟹   XP_021583335
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,244,073 - 111,419,122 (+)NCBI
SpeTri2.0NW_0049365309,089,527 - 9,264,563 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021727661   ⟹   XP_021583336
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,244,073 - 111,419,122 (+)NCBI
SpeTri2.0NW_0049365309,089,527 - 9,264,563 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021727662   ⟹   XP_021583337
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,244,074 - 111,418,244 (+)NCBI
SpeTri2.0NW_0049365309,089,527 - 9,264,563 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040278431   ⟹   XP_040134365
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,244,073 - 111,415,689 (+)NCBI
RefSeq Acc Id: XM_040278432   ⟹   XP_040134366
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,244,073 - 111,409,974 (+)NCBI
RefSeq Acc Id: XM_040278433   ⟹   XP_040134367
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,264,398 - 111,419,122 (+)NCBI
RefSeq Acc Id: XM_040278434   ⟹   XP_040134368
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,257,688 - 111,419,122 (+)NCBI
RefSeq Acc Id: XM_040278435   ⟹   XP_040134369
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024409344111,257,688 - 111,419,122 (+)NCBI
RefSeq Acc Id: XP_005327239   ⟸   XM_005327182
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_013214967   ⟸   XM_013359513
- Peptide Label: isoform X2
- UniProtKB: I3LYI2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021583334   ⟸   XM_021727659
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_021583337   ⟸   XM_021727662
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_021583336   ⟸   XM_021727661
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_021583335   ⟸   XM_021727660
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_040134365   ⟸   XM_040278431
- Peptide Label: isoform X6
RefSeq Acc Id: XP_040134366   ⟸   XM_040278432
- Peptide Label: isoform X7
RefSeq Acc Id: XP_040134368   ⟸   XM_040278434
- Peptide Label: isoform X8
RefSeq Acc Id: XP_040134369   ⟸   XM_040278435
- Peptide Label: isoform X9
RefSeq Acc Id: XP_040134367   ⟸   XM_040278433
- Peptide Label: isoform X8
Ensembl Acc Id: ENSSTOP00000025361   ⟸   ENSSTOT00000040813
Ensembl Acc Id: ENSSTOP00000001254   ⟸   ENSSTOT00000001398
Protein Domains
CLEC16A/TT9 C-terminal   FPL


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000001389 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000001398.3 UniProtKB/TrEMBL
  ENSSTOT00000040813.1 UniProtKB/TrEMBL
InterPro CLEC16A/TT9 UniProtKB/TrEMBL
  CLEC16A/TT9_N UniProtKB/TrEMBL
  CLEC16A_C UniProtKB/TrEMBL
NCBI Gene Clec16a ENTREZGENE
PANTHER PROTEIN CLEC16A UniProtKB/TrEMBL
  PTHR21481 UniProtKB/TrEMBL
Pfam CLEC16A_C UniProtKB/TrEMBL
  FPL UniProtKB/TrEMBL
UniProt A0A287CVR0_ICTTR UniProtKB/TrEMBL
  I3LYI2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-28 Clec16a  C-type lectin domain containing 16A    C-type lectin domain family 16 member A  Symbol and/or name change 5135510 APPROVED